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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/DESeq_1.40.0.tar.gz && rm -rf DESeq.buildbin-libdir && mkdir DESeq.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DESeq.buildbin-libdir DESeq_1.40.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL DESeq_1.40.0.zip && rm DESeq_1.40.0.tar.gz DESeq_1.40.0.zip
###
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install for i386

* installing *source* package 'DESeq' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c pval.c -o pval.o
pval.c: In function 'add_from_both_sides':
pval.c:26:11: warning: unused variable 'esttotalperlength' [-Wunused-variable]
    double esttotalperlength = total/2;
           ^~~~~~~~~~~~~~~~~
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o DESeq.dll tmp.def pval.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/DESeq.buildbin-libdir/00LOCK-DESeq/00new/DESeq/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'DESeq'
    finding HTML links ... done
    CountDataSet-class                      html  
    adjustScvForBias                        html  
    conditions                              html  
    counts                                  html  
    dispTable                               html  
    estimateDispersions                     html  
    estimateSizeFactors                     html  
    estimateSizeFactorsForMatrix            html  
    estimateVarianceFunctions               html  
    fitInfo                                 html  
    fitNbinomGLMs                           html  
    fitNbinomGLMsForMatrix                  html  
    getBaseMeansAndVariances                html  
    getVarianceStabilizedData               html  
    makeExampleCountDataSet                 html  
    nbinomGLMTest                           html  
    nbinomTest                              html  
    nbinomTestForMatrices                   html  
    nbkd.sf                                 html  
    newCountDataSet                         html  
    newCountDataSetFromHTSeqCount           html  
    plotDispEsts                            html  
    plotMA                                  html  
    plotPCA                                 html  
    residualsEcdfPlot                       html  
    scvPlot                                 html  
    sizeFactors                             html  
    varianceFitDiagnostics                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: Package 'DESeq' is deprecated and will be removed from Bioconductor
  version 3.13. Please use DESeq2
** testing if installed package can be loaded from final location
Warning: Package 'DESeq' is deprecated and will be removed from Bioconductor
  version 3.13. Please use DESeq2
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'DESeq' ...
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.11-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c pval.c -o pval.o
pval.c: In function 'add_from_both_sides':
pval.c:26:11: warning: unused variable 'esttotalperlength' [-Wunused-variable]
    double esttotalperlength = total/2;
           ^~~~~~~~~~~~~~~~~
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o DESeq.dll tmp.def pval.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.11-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.11-bioc/meat/DESeq.buildbin-libdir/DESeq/libs/x64
** testing if installed package can be loaded
Warning: Package 'DESeq' is deprecated and will be removed from Bioconductor
  version 3.13. Please use DESeq2
* MD5 sums
packaged installation of 'DESeq' as DESeq_1.40.0.zip
* DONE (DESeq)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'DESeq' successfully unpacked and MD5 sums checked